Job ID = 7105821 SRX = SRX6911533 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18075878 spots for SRR10191144/SRR10191144.sra Written 18075878 spots for SRR10191144/SRR10191144.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:33 18075878 reads; of these: 18075878 (100.00%) were paired; of these: 10060385 (55.66%) aligned concordantly 0 times 5786688 (32.01%) aligned concordantly exactly 1 time 2228805 (12.33%) aligned concordantly >1 times ---- 10060385 pairs aligned concordantly 0 times; of these: 1598163 (15.89%) aligned discordantly 1 time ---- 8462222 pairs aligned 0 times concordantly or discordantly; of these: 16924444 mates make up the pairs; of these: 15512126 (91.66%) aligned 0 times 407027 (2.40%) aligned exactly 1 time 1005291 (5.94%) aligned >1 times 57.09% overall alignment rate Time searching: 00:14:33 Overall time: 00:14:33 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1911805 / 9611217 = 0.1989 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:05:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 13:05:07: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:05:07: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:05:13: 1000000 INFO @ Wed, 22 Jul 2020 13:05:19: 2000000 INFO @ Wed, 22 Jul 2020 13:05:25: 3000000 INFO @ Wed, 22 Jul 2020 13:05:30: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:05:36: 5000000 INFO @ Wed, 22 Jul 2020 13:05:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 13:05:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:05:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:05:42: 6000000 INFO @ Wed, 22 Jul 2020 13:05:43: 1000000 INFO @ Wed, 22 Jul 2020 13:05:49: 7000000 INFO @ Wed, 22 Jul 2020 13:05:49: 2000000 INFO @ Wed, 22 Jul 2020 13:05:55: 8000000 INFO @ Wed, 22 Jul 2020 13:05:56: 3000000 INFO @ Wed, 22 Jul 2020 13:06:01: 9000000 INFO @ Wed, 22 Jul 2020 13:06:02: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:06:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 13:06:07: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:06:07: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:06:08: 10000000 INFO @ Wed, 22 Jul 2020 13:06:08: 5000000 INFO @ Wed, 22 Jul 2020 13:06:13: 1000000 INFO @ Wed, 22 Jul 2020 13:06:14: 11000000 INFO @ Wed, 22 Jul 2020 13:06:14: 6000000 INFO @ Wed, 22 Jul 2020 13:06:20: 2000000 INFO @ Wed, 22 Jul 2020 13:06:20: 12000000 INFO @ Wed, 22 Jul 2020 13:06:21: 7000000 INFO @ Wed, 22 Jul 2020 13:06:26: 3000000 INFO @ Wed, 22 Jul 2020 13:06:27: 13000000 INFO @ Wed, 22 Jul 2020 13:06:27: 8000000 INFO @ Wed, 22 Jul 2020 13:06:32: 4000000 INFO @ Wed, 22 Jul 2020 13:06:33: 14000000 INFO @ Wed, 22 Jul 2020 13:06:33: 9000000 INFO @ Wed, 22 Jul 2020 13:06:39: 5000000 INFO @ Wed, 22 Jul 2020 13:06:40: 15000000 INFO @ Wed, 22 Jul 2020 13:06:40: 10000000 INFO @ Wed, 22 Jul 2020 13:06:45: 6000000 INFO @ Wed, 22 Jul 2020 13:06:46: 11000000 INFO @ Wed, 22 Jul 2020 13:06:46: 16000000 INFO @ Wed, 22 Jul 2020 13:06:51: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:06:51: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:06:51: #1 total tags in treatment: 6285966 INFO @ Wed, 22 Jul 2020 13:06:51: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:06:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:06:51: #1 tags after filtering in treatment: 4224201 INFO @ Wed, 22 Jul 2020 13:06:51: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 13:06:51: #1 finished! INFO @ Wed, 22 Jul 2020 13:06:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:06:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:06:51: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 13:06:51: Too few paired peaks (28) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 13:06:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:06:52: 7000000 INFO @ Wed, 22 Jul 2020 13:06:52: 12000000 INFO @ Wed, 22 Jul 2020 13:06:58: 8000000 INFO @ Wed, 22 Jul 2020 13:06:58: 13000000 INFO @ Wed, 22 Jul 2020 13:07:04: 9000000 INFO @ Wed, 22 Jul 2020 13:07:05: 14000000 INFO @ Wed, 22 Jul 2020 13:07:11: 10000000 INFO @ Wed, 22 Jul 2020 13:07:11: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:07:17: 11000000 INFO @ Wed, 22 Jul 2020 13:07:17: 16000000 INFO @ Wed, 22 Jul 2020 13:07:22: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:07:22: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:07:22: #1 total tags in treatment: 6285966 INFO @ Wed, 22 Jul 2020 13:07:22: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:07:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:07:22: #1 tags after filtering in treatment: 4224201 INFO @ Wed, 22 Jul 2020 13:07:22: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 13:07:22: #1 finished! INFO @ Wed, 22 Jul 2020 13:07:22: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:07:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:07:23: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 13:07:23: Too few paired peaks (28) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 13:07:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:07:23: 12000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:07:29: 13000000 INFO @ Wed, 22 Jul 2020 13:07:35: 14000000 INFO @ Wed, 22 Jul 2020 13:07:41: 15000000 INFO @ Wed, 22 Jul 2020 13:07:48: 16000000 INFO @ Wed, 22 Jul 2020 13:07:53: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:07:53: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:07:53: #1 total tags in treatment: 6285966 INFO @ Wed, 22 Jul 2020 13:07:53: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:07:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:07:53: #1 tags after filtering in treatment: 4224201 INFO @ Wed, 22 Jul 2020 13:07:53: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 13:07:53: #1 finished! INFO @ Wed, 22 Jul 2020 13:07:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:07:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:07:53: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 13:07:53: Too few paired peaks (28) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 13:07:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911533/SRX6911533.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling